Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1683876
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:1034053 original size:20 final size:20
Alignment explanation
Indices: 1034030--1034079 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1034020 GGAATTTGAA
1034030 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1034050 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1034070 TTCTGGAAAA
1 TTCTGGAAAA
1034080 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1034296 original size:18 final size:19
Alignment explanation
Indices: 1034273--1034308 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1034263 AATATTATTC
1034273 ATTATTAAATA-TAAAAAA
1 ATTATTAAATATTAAAAAA
*
1034291 ATTATTATATATTAAAAA
1 ATTATTAAATATTAAAAA
1034309 TAAAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTATTAAATATTAAAAAA
Found at i:1034327 original size:49 final size:49
Alignment explanation
Indices: 1034249--1034381 Score: 128
Period size: 49 Copynumber: 2.7 Consensus size: 49
1034239 ACTAAAATAT
*
1034249 TATTGAAATATAATAATATTATTCATTATTAAATATAAAAAAATTATTAT-A
1 TATT-AAAAATAA-AATATTATT-ATTATTAAATATAAAAAAATTATTATAA
* ** ** *
1034300 TATTAAAAATAAAATATCT-TATATTATTATATATATGATTATTTTTATAA
1 TATTAAAAATAAAATAT-TAT-TATTATTAAATATAAAAAAATTATTATAA
*
1034350 TATTAAAAATATAATATTATTATTA-TAAATAT
1 TATTAAAAATAAAATATTATTATTATTAAATAT
1034382 TAATAAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
48 6 0.09
49 32 0.46
50 27 0.39
51 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (49 bp):
TATTAAAAATAAAATATTATTATTATTAAATATAAAAAAATTATTATAA
Found at i:1034354 original size:14 final size:14
Alignment explanation
Indices: 1034320--1034416 Score: 59
Period size: 14 Copynumber: 7.4 Consensus size: 14
1034310 AAAATATCTT
1034320 ATATTATTA-TATA
1 ATATTATTATTATA
*
1034333 TATGATTATTTTTATA
1 -AT-ATTATTATTATA
** *
1034349 ATATTAAAAATATA
1 ATATTATTATTATA
1034363 ATATTATTATTATA
1 ATATTATTATTATA
*
1034377 A-A-TATTAATA-A
1 ATATTATTATTATA
1034388 ATA-TATT-TTA-A
1 ATATTATTATTATA
1034399 ATATT-TTAATT-TA
1 ATATTATT-ATTATA
1034412 ATATT
1 ATATT
1034417 TTGATGAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.15
12 13 0.20
13 9 0.14
14 22 0.33
15 8 0.12
16 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (14 bp):
ATATTATTATTATA
Found at i:1034370 original size:28 final size:32
Alignment explanation
Indices: 1034328--1034393 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 32
1034318 TTATATTATT
*
1034328 ATATATATGATTATTTTTAT-AATATTAA-AA
1 ATATATATGATTATTATTATAAATATTAATAA
1034358 ATATA-AT-ATTATTATTATAAATATTAATAA
1 ATATATATGATTATTATTATAAATATTAATAA
1034388 ATATAT
1 ATATAT
1034394 TTTAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 10 0.31
29 10 0.31
30 12 0.38
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
ATATATATGATTATTATTATAAATATTAATAA
Found at i:1034394 original size:21 final size:20
Alignment explanation
Indices: 1034349--1034403 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
1034339 TATTTTTATA
* *
1034349 ATATTAAAAATA-TAATATT
1 ATATTATAAATATTAATAAT
1034368 ATTATTATAAATATTAATAAAT
1 A-TATTATAAATATTAAT-AAT
*
1034390 ATATTTTAAATATT
1 ATATTATAAATATT
1034404 TTAATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 10 0.33
21 16 0.53
22 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATAAATATTAATAAT
Found at i:1034764 original size:6 final size:6
Alignment explanation
Indices: 1034753--1035005 Score: 492
Period size: 6 Copynumber: 42.5 Consensus size: 6
1034743 CCCACATCCA
1034753 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1034801 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1034849 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1034895 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1034943 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1034991 ATATAC ATATAC ATA
1 ATATAC ATATAC ATA
1035006 CAATCTAAGA
Statistics
Matches: 245, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.02
6 241 0.98
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:1036050 original size:23 final size:23
Alignment explanation
Indices: 1036006--1036066 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
1035996 CGAAAACTTA
* * *
1036006 CCATAGAGGCAAAAAAAAATGTG
1 CCATAAAGGCAGAATAAAATGTG
* *
1036029 CCATAAAGGCAGAATAATATGTT
1 CCATAAAGGCAGAATAAAATGTG
* *
1036052 CCAAAAACGCAGAAT
1 CCATAAAGGCAGAAT
1036067 TATTAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (23 bp):
CCATAAAGGCAGAATAAAATGTG
Found at i:1037547 original size:27 final size:27
Alignment explanation
Indices: 1037508--1037561 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1037498 TAAAGTAAGC
1037508 TTTGATTTATTTTCATCGTGTACAAGT
1 TTTGATTTATTTTCATCGTGTACAAGT
*
1037535 TTTGATTTCTTTTCATCGTGTACAAGT
1 TTTGATTTATTTTCATCGTGTACAAGT
1037562 GTAGGGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.52
Consensus pattern (27 bp):
TTTGATTTATTTTCATCGTGTACAAGT
Found at i:1044198 original size:4 final size:4
Alignment explanation
Indices: 1044184--1044307 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
1044174 ATATGTATAT
* * * * * * *
1044184 CATG TATG CATG CATG TATG TATG CATG CACG TATG TATG CATG CACG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
* * * * * * * *
1044232 TATG TATG CATG CACG TATG TATG CATG CACG TATG TATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
* * * *
1044280 CATG TATG TATG CATG CACG CACG CATG
1 CATG CATG CATG CATG CATG CATG CATG
1044308 TATGTATATT
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 96 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (4 bp):
CATG
Found at i:1044206 original size:16 final size:16
Alignment explanation
Indices: 1044185--1044299 Score: 185
Period size: 16 Copynumber: 6.9 Consensus size: 16
1044175 TATGTATATC
*
1044185 ATGTATGCATGCATGT
1 ATGTATGCATGCACGT
1044201 ATGTATGCATGCACGT
1 ATGTATGCATGCACGT
1044217 ATGTATGCATGCACGT
1 ATGTATGCATGCACGT
1044233 ATGTATGCATGCACGT
1 ATGTATGCATGCACGT
1044249 ATGTATGCATGCACGT
1 ATGTATGCATGCACGT
1044265 ATGTATGCATGCATGCATGT
1 ATGTATGCATGCA--C--GT
1044285 ATGTATGCATGCACG
1 ATGTATGCATGCACG
1044300 CACGCATGTA
Statistics
Matches: 94, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
16 77 0.82
18 2 0.02
20 15 0.16
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (16 bp):
ATGTATGCATGCACGT
Found at i:1044306 original size:24 final size:24
Alignment explanation
Indices: 1044263--1044314 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1044253 ATGCATGCAC
* * *
1044263 GTATGTATGCATGCATGCATGTAT
1 GTATGCATGCACGCACGCATGTAT
1044287 GTATGCATGCACGCACGCATGTAT
1 GTATGCATGCACGCACGCATGTAT
1044311 GTAT
1 GTAT
1044315 ATTTGGAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
GTATGCATGCACGCACGCATGTAT
Found at i:1049302 original size:36 final size:36
Alignment explanation
Indices: 1049262--1049339 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
1049252 AACAAAAAGA
* **
1049262 ACCATTCATCGCTCCAATCGAAGAAACTGAAGAAAC
1 ACCATTCATCGCTCCAATCAAAGAAACAAAAGAAAC
* *
1049298 ACCATTCATCGCTCCGATCAAAGAAACAAAAGAAAT
1 ACCATTCATCGCTCCAATCAAAGAAACAAAAGAAAC
1049334 ACCATT
1 ACCATT
1049340 TATGGCAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.18
Consensus pattern (36 bp):
ACCATTCATCGCTCCAATCAAAGAAACAAAAGAAAC
Found at i:1053973 original size:28 final size:28
Alignment explanation
Indices: 1053932--1053986 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
1053922 CATTGGTAGA
*
1053932 TGAACCAACCAATTAATAAAGAAATTGG
1 TGAACCAACAAATTAATAAAGAAATTGG
*
1053960 TGAACTAACAAATTAATAAAGAAATTG
1 TGAACCAACAAATTAATAAAGAAATTG
1053987 ATGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (28 bp):
TGAACCAACAAATTAATAAAGAAATTGG
Found at i:1054509 original size:22 final size:22
Alignment explanation
Indices: 1054478--1054526 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1054468 CTTACAACGG
* *
1054478 ACCATTTTGTAACCATTTAAAA-
1 ACCATATTGTAA-CAATTAAAAT
1054500 ACCATATTGTAACAATTAAAAT
1 ACCATATTGTAACAATTAAAAT
1054522 ACCAT
1 ACCAT
1054527 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (22 bp):
ACCATATTGTAACAATTAAAAT
Found at i:1056931 original size:20 final size:17
Alignment explanation
Indices: 1056882--1056925 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
1056872 TAATTTGTTA
1056882 ATAAAATAAT-TTAA--
1 ATAAAATAATATTAATC
1056896 ATAAAATAATATTAATC
1 ATAAAATAATATTAATC
1056913 ATAAAATAATATT
1 ATAAAATAATATT
1056926 TTTAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.37
15 4 0.15
17 13 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAATAATATTAATC
Found at i:1056965 original size:25 final size:25
Alignment explanation
Indices: 1056936--1056984 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1056926 TTTAATTCAA
*
1056936 ATTTTCATTT-ATGATATAATTTTTT
1 ATTTT-ATTTAATGATATAAATTTTT
*
1056961 ATTTTATTTAATGATTTAAATTTT
1 ATTTTATTTAATGATATAAATTTT
1056985 GTCTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
ATTTTATTTAATGATATAAATTTTT
Found at i:1059586 original size:14 final size:14
Alignment explanation
Indices: 1059567--1059594 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1059557 GCACCCTGAC
1059567 CATTTTAACAACTT
1 CATTTTAACAACTT
1059581 CATTTTAACAACTT
1 CATTTTAACAACTT
1059595 GAATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
CATTTTAACAACTT
Found at i:1075980 original size:18 final size:17
Alignment explanation
Indices: 1075952--1075985 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1075942 ATATTATAAT
1075952 TAAAAATATATAATTTC
1 TAAAAATATATAATTTC
*
1075969 TAAAACATATATGATTT
1 TAAAA-ATATATAATTT
1075986 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAAAATATATAATTTC
Found at i:1076738 original size:16 final size:16
Alignment explanation
Indices: 1076717--1076758 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
1076707 TTTTTAAAAC
1076717 TCAATTATAAATTAAT
1 TCAATTATAAATTAAT
*
1076733 TCAATTAAAAATTAAT
1 TCAATTATAAATTAAT
*
1076749 T-AATAATAAA
1 TCAATTATAAA
1076759 CTATAACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATTATAAATTAAT
Found at i:1079280 original size:224 final size:225
Alignment explanation
Indices: 1078935--1079373 Score: 589
Period size: 224 Copynumber: 2.0 Consensus size: 225
1078925 AACTCCATTC
** * * *
1078935 AAACAAATGATCCACATCGAAGTCTCAGATTAAAATAAAAAATAAAAACAGAATTTCTCACAAAA
1 AAACAAATGATCCACATAAAACTCGCAGATTAAAAGAAAAAATAAAAACAGAATTTCTCACAAAA
* * * *
1079000 ATGACTTAGTCACAGCAAAATCCTGGACGATTTTTTAATTAGAACACAAATCGAGATATTTTATT
66 ATGACTGAGTCACAACAAAATCCTGGACGATTTTTTAATTAAAACACAAATCGAGATATTTTACT
* * * *
1079065 TTAGTTTAATTTATAATTAGGT-ATAATTTATTCATGCTATAAATATATCTAAAAATAAAAAATC
131 GTACTTTAATTTATAA-TAAGTCATAATTTAGTCATGCTATAAATATATCTAAAAATAAAAAATC
*
1079129 AAAATAATTCACATAAAAATAATAAATAAAT
195 AAAACAATTCACATAAAAATAATAAATAAAT
* * * *
1079160 AAACAAATGATCCACATAAAACTCGCAGATTTAAAGCAAAAAT-AAAACAGAGTTTCTCACAGAA
1 AAACAAATGATCCACATAAAACTCGCAGATTAAAAGAAAAAATAAAAACAGAATTTCTCACAAAA
* * * * *
1079224 ATGACTCGA-TCACAATAAAATCCTGGA-TACTTTTTTATTTAAAACGCAATTCGAGATATTTTA
66 ATGACT-GAGTCACAACAAAATCCTGGACGA-TTTTTTAATTAAAACACAAATCGAGATATTTTA
* * *
1079287 CTGTACTTTAATTTATAATAATTCATGATTTAGTCATGCTATAAATATATCTAAAGATAAAAAAT
129 CTGTACTTTAATTTATAATAAGTCATAATTTAGTCATGCTATAAATATATCTAAAAATAAAAAAT
1079352 CAAAACAATTCACATAAAAATA
194 CAAAACAATTCACATAAAAATA
1079374 TCGGATCTAT
Statistics
Matches: 185, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
223 4 0.02
224 144 0.78
225 37 0.20
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.31
Consensus pattern (225 bp):
AAACAAATGATCCACATAAAACTCGCAGATTAAAAGAAAAAATAAAAACAGAATTTCTCACAAAA
ATGACTGAGTCACAACAAAATCCTGGACGATTTTTTAATTAAAACACAAATCGAGATATTTTACT
GTACTTTAATTTATAATAAGTCATAATTTAGTCATGCTATAAATATATCTAAAAATAAAAAATCA
AAACAATTCACATAAAAATAATAAATAAAT
Found at i:1080384 original size:26 final size:26
Alignment explanation
Indices: 1080354--1080410 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
1080344 ATGTGTTTTT
1080354 TGACAAAGCAACTTAGCAATACTTGG
1 TGACAAAGCAACTTAGCAATACTTGG
1080380 TGACAAAGCAACTTAGCAATACTTGG
1 TGACAAAGCAACTTAGCAATACTTGG
*
1080406 GGACA
1 TGACA
1080411 GAGAAAAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (26 bp):
TGACAAAGCAACTTAGCAATACTTGG
Found at i:1083377 original size:126 final size:129
Alignment explanation
Indices: 1083151--1083406 Score: 491
Period size: 126 Copynumber: 2.0 Consensus size: 129
1083141 AGAATTCTCC
1083151 AGAGTTATCTTTTCCTTTCTTCTTCTTCTTCTTCACGGGGAAGCCAAGAGCCAAAGGTAAGTTTC
1 AGAGTTATCTTTTCCTTTCTTCTTCTTCTTCTTCACGGGGAAGCCAAGAGCCAAAGGTAAGTTTC
1083216 TTTGTTTATAATTGAATTGTTGATTTTAAGGTTGGGTTTTAATTATTAGAT-AT-ACTAAGCTT
66 TTTGTTTATAATTGAATTGTTGATTTTAAGGTTGGGTTTTAATTATTAGATGATAACTAAGCTT
1083278 AGAGTTATCTTTTCCTTTC-TCTTCTTCTTCTTCACGGGGAAGCCAAGAGCCAAAGGTAAGTTTC
1 AGAGTTATCTTTTCCTTTCTTCTTCTTCTTCTTCACGGGGAAGCCAAGAGCCAAAGGTAAGTTTC
1083342 TTTGTTTATAATTGAATTGTTGATTTTAAGGTTGGGTTTTAATTATTAGATGATAACTAAGCTT
66 TTTGTTTATAATTGAATTGTTGATTTTAAGGTTGGGTTTTAATTATTAGATGATAACTAAGCTT
1083406 A
1 A
1083407 AGGAAAGCTT
Statistics
Matches: 127, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
126 96 0.76
127 21 0.17
128 10 0.08
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (129 bp):
AGAGTTATCTTTTCCTTTCTTCTTCTTCTTCTTCACGGGGAAGCCAAGAGCCAAAGGTAAGTTTC
TTTGTTTATAATTGAATTGTTGATTTTAAGGTTGGGTTTTAATTATTAGATGATAACTAAGCTT
Found at i:1084492 original size:15 final size:16
Alignment explanation
Indices: 1084472--1084502 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1084462 GATTTACATG
1084472 AATACATGT-ATATAT
1 AATACATGTGATATAT
1084487 AATACATGTGATATAT
1 AATACATGTGATATAT
1084503 GAGATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (16 bp):
AATACATGTGATATAT
Found at i:1084673 original size:31 final size:30
Alignment explanation
Indices: 1084634--1084726 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
1084624 GTCGAGGGTT
1084634 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
1084664 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
1084695 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
1084725 TT
1 TT
1084727 GCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:1084707 original size:30 final size:30
Alignment explanation
Indices: 1084652--1084737 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
1084642 GTCTTTCGAG
*
1084652 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
1084683 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
1084713 ACCTATGGACAGTTGCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
1084738 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:1084746 original size:30 final size:30
Alignment explanation
Indices: 1084655--1084760 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
1084645 TTTCGAGACA
* * * *
1084655 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
1084686 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
1084716 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
1084746 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
1084761 GGTCTGTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:1085701 original size:3 final size:3
Alignment explanation
Indices: 1085695--1085723 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1085685 GGAGGAGGAG
1085695 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1085724 GTCAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1096787 original size:3 final size:3
Alignment explanation
Indices: 1096779--1096842 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
1096769 ACAAAATCCA
1096779 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1096826 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
1096843 AAACAAGTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1100948 original size:23 final size:23
Alignment explanation
Indices: 1100918--1100966 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1100908 ATAGCTTTGT
1100918 GGGTGATGCAGCCTGGTTGGTAG
1 GGGTGATGCAGCCTGGTTGGTAG
*
1100941 GGGTGATGTAGCCTGGTTGGTAG
1 GGGTGATGCAGCCTGGTTGGTAG
1100964 GGG
1 GGG
1100967 CGATTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.10, G:0.51, T:0.27
Consensus pattern (23 bp):
GGGTGATGCAGCCTGGTTGGTAG
Found at i:1104712 original size:2 final size:2
Alignment explanation
Indices: 1104700--1104746 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
1104690 CATGCACGTC
* *
1104700 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1104742 TA TA T
1 TA TA T
1104747 TTTTTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1106080 original size:29 final size:31
Alignment explanation
Indices: 1106046--1106123 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 31
1106036 ATCAAACCTA
*
1106046 ACTTTTAATTTAATCACTGAAGTTT-AAATT
1 ACTTTTAATTTAATCACTGAAATTTCAAATT
* *
1106076 -CTTTTAATTTAATTACTTAAATTTCAAATT
1 ACTTTTAATTTAATCACTGAAATTTCAAATT
**
1106106 ACTCCTAATTTAATCACT
1 ACTTTTAATTTAATCACT
1106124 TTAGATTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.52
30 5 0.12
31 14 0.35
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (31 bp):
ACTTTTAATTTAATCACTGAAATTTCAAATT
Found at i:1106550 original size:23 final size:22
Alignment explanation
Indices: 1106510--1106554 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1106500 TTCCTTTATT
1106510 TTTTTCTTCTCTTCCTCTTCTAA
1 TTTTTCTTCTCTTCCTC-TCTAA
*
1106533 TTTTTCTGTGTCTT-CTCTCTAA
1 TTTTTCT-TCTCTTCCTCTCTAA
1106555 AAGGCGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.09, C:0.27, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTCTTCTCTTCCTCTCTAA
Found at i:1107721 original size:21 final size:20
Alignment explanation
Indices: 1107697--1107764 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 20
1107687 ATCATCAATA
1107697 GAAAATTAAATAAAAAAGAAG
1 GAAAATTAAA-AAAAAAGAAG
* *
1107718 GAAATAACTAAAAAGAAAGAAG
1 G-AA-AATTAAAAAAAAAGAAG
1107740 G-AAATTAAAAGAAGAAAGAA-
1 GAAAATTAAAA-AA-AAAGAAG
1107760 GAAAA
1 GAAAA
1107765 CTACTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.18
20 3 0.08
21 10 0.26
22 12 0.32
23 6 0.16
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (20 bp):
GAAAATTAAAAAAAAAGAAG
Found at i:1107739 original size:22 final size:21
Alignment explanation
Indices: 1107699--1107760 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1107689 CATCAATAGA
*
1107699 AAATTAAATAAA-AAAGAAGG
1 AAATTAAAAAAAGAAAGAAGG
1107719 AAA-TAACTAAAAAGAAAGAAGG
1 AAATTAA--AAAAAGAAAGAAGG
*
1107741 AAATTAAAAGAAGAAAGAAG
1 AAATTAAAAAAAGAAAGAAG
1107761 AAAACTACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 16 0.44
22 11 0.31
23 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (21 bp):
AAATTAAAAAAAGAAAGAAGG
Found at i:1108049 original size:35 final size:36
Alignment explanation
Indices: 1108002--1108079 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
1107992 ATGTTTTTTT
* * * *
1108002 TTAAATGAGACTTAATGAGAACT-TT-AAAAGAAAA
1 TTAAAAGAGACTTAATGAAAAATATTCAAAAAAAAA
*
1108036 TTAAAAGAGGACTTAATTAAAAATATTCAAAAAAAAA
1 TTAAAAGA-GACTTAATGAAAAATATTCAAAAAAAAA
1108073 TTAAAAG
1 TTAAAAG
1108080 CTAATGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 7 0.19
35 12 0.33
36 2 0.06
37 15 0.42
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (36 bp):
TTAAAAGAGACTTAATGAAAAATATTCAAAAAAAAA
Found at i:1108282 original size:59 final size:58
Alignment explanation
Indices: 1108159--1108290 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 58
1108149 ATTTATCGGG
** *
1108159 TAAAG-TACACAAATGGTCCCTCAACTATAGGGTGTTGCTTTGTTGAGTCCCTCAACTAT
1 TAAAGTTACA-AAATGGTCCCTCAACTATAGGGCATTGCTTTATTGAGTCCCTCAAC-AT
*
1108218 TAAAGTTACAAAATGGT-CCTCCAACTATAGGGCATTGTTTTATTGAGT-CCTCGGAA-AT
1 TAAAGTTACAAAATGGTCCCT-CAACTATAGGGCATTGCTTTATTGAGTCCCTC--AACAT
1108276 TAAAAGTTACAAAAT
1 T-AAAGTTACAAAAT
1108291 TATCATTCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
58 10 0.16
59 48 0.75
60 6 0.09
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (58 bp):
TAAAGTTACAAAATGGTCCCTCAACTATAGGGCATTGCTTTATTGAGTCCCTCAACAT
Found at i:1111334 original size:9 final size:9
Alignment explanation
Indices: 1111320--1111376 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
1111310 ACCGTCAGTA
*
1111320 TTTATTGTT
1 TTTATTATT
*
1111329 TTTATTTTCT
1 TTTATTAT-T
*
1111339 TTTATTATA
1 TTTATTATT
1111348 TTT-TTATT
1 TTTATTATT
*
1111356 TTTATTTTT
1 TTTATTATT
1111365 TTTATT-TT
1 TTTATTATT
1111373 TTTA
1 TTTA
1111377 ATACCTCAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 13 0.32
9 20 0.49
10 8 0.20
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTATTATT
Found at i:1111351 original size:15 final size:13
Alignment explanation
Indices: 1111329--1111375 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
1111319 ATTTATTGTT
1111329 TTTATTTTCTTTTA
1 TTTATTTT-TTTTA
*
1111343 TTATATTTTTATT-
1 TT-TATTTTTTTTA
1111356 TTTATTTTTTTTA
1 TTTATTTTTTTTA
1111369 TTT-TTTT
1 TTTATTTT
1111376 AATACCTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 13 0.45
13 5 0.17
14 5 0.17
15 6 0.21
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:1111367 original size:26 final size:28
Alignment explanation
Indices: 1111318--1111370 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
1111308 CGACCGTCAG
*
1111318 TATTTATTGTTTTTATTTTCTTTTATTA
1 TATTTATTATTTTTATTTTCTTTTATTA
1111346 TATTT-TTATTTTTATTTT-TTTTATT
1 TATTTATTATTTTTATTTTCTTTTATT
1111371 TTTTTAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (28 bp):
TATTTATTATTTTTATTTTCTTTTATTA
Found at i:1117637 original size:18 final size:18
Alignment explanation
Indices: 1117613--1117653 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1117603 CTCCTATAAA
*
1117613 ATAAAAAAATTTAATATT
1 ATAAAAAAATATAATATT
*
1117631 TTAAAAAAATATAATATT
1 ATAAAAAAATATAATATT
1117649 ATAAA
1 ATAAA
1117654 TTATTGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAAAATATAATATT
Found at i:1117910 original size:20 final size:21
Alignment explanation
Indices: 1117885--1117944 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
1117875 ACTTCAAATT
1117885 TTAAATTTATTTAAA-TGATA
1 TTAAATTTATTTAAATTGATA
* *
1117905 TTAAATTAACTTAAATTGATAA
1 TTAAATTTATTTAAATTGAT-A
* *
1117927 TAAAATTATATTTTAATT
1 TTAAATT-TATTTAAATT
1117945 CCTTGTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 13 0.42
21 4 0.13
22 7 0.23
23 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
TTAAATTTATTTAAATTGATA
Found at i:1118412 original size:15 final size:15
Alignment explanation
Indices: 1118389--1118466 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 15
1118379 AAATAATTAA
*
1118389 AATATTATATTTTAT
1 AATAATATATTTTAT
1118404 AATAATATA-TTTAT
1 AATAATATATTTTAT
* * *
1118418 AATCATTTATTATAT
1 AATAATATATTTTAT
** * *
1118433 TTTAA-AT-TATTAA
1 AATAATATATTTTAT
1118446 AATAATATATTTTAT
1 AATAATATATTTTAT
1118461 AATAAT
1 AATAAT
1118467 TTGCTATATT
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
13 6 0.13
14 15 0.33
15 24 0.53
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:1118475 original size:43 final size:42
Alignment explanation
Indices: 1118404--1118501 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
1118394 TATATTTTAT
* * *
1118404 AATAATATA-TTTATAATCATTTATTATATTTTAAATTATTAA
1 AATAATATATTTTATAATAATTTACTATATTTTAAATAATT-A
* *
1118446 AATAATATATTTTATAATAATTTGCTATATTTTTAATAATTA
1 AATAATATATTTTATAATAATTTACTATATTTTAAATAATTA
*
1118488 AATAATATGTTTTA
1 AATAATATATTTTA
1118502 ACATTATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 23 0.47
43 26 0.53
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (42 bp):
AATAATATATTTTATAATAATTTACTATATTTTAAATAATTA
Found at i:1119444 original size:157 final size:159
Alignment explanation
Indices: 1119136--1119454 Score: 554
Period size: 159 Copynumber: 2.0 Consensus size: 159
1119126 AAAACTATTG
*
1119136 ATTTCTCTCTTTTTTTTTCTCTCGTAAAAGTTTTCTTATTTTTAACCTTTTAATCTCACCCATTG
1 ATTTCTCTC-TTTTTTTTCTCTCGTAAAAGTTTTCTTACTTTTAACCTTTTAATCTCACCCATTG
*
1119201 ATTTACACTTACCTATAATTTTTTTTTATAATTTTGAGATAAATATATGATAATATTTATTAAAA
65 ATTTACAATTACCTATAA-TTTTTTTTATAATTTTGAGATAAATATATGATAATATTTATTAAAA
1119266 AAATTTCAAATATTTTATAATGAATGTTCAT
129 AAATTTCAAATATTTTATAATGAATGTTCAT
*
1119297 ATTTCTCTC-TTTTTTTCTCTCGTAAAAGTTTTCTTACTTTTAACCTTTTAATCTCGCCCATTGA
1 ATTTCTCTCTTTTTTTTCTCTCGTAAAAGTTTTCTTACTTTTAACCTTTTAATCTCACCCATTGA
*
1119361 TTTACAATTACCTATAA-TTTTTTTATAATTTTGAGATAAATATATGATAATATTTGTT-AAAAA
66 TTTACAATTACCTATAATTTTTTTTATAATTTTGAGATAAATATATGATAATATTTATTAAAAAA
1119424 ATTCTCAAATATTTTATAATGAATGTTCAT
131 ATT-TCAAATATTTTATAATGAATGTTCAT
1119454 A
1 A
1119455 CTCAATAATA
Statistics
Matches: 153, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 8 0.05
157 67 0.44
159 69 0.45
161 9 0.06
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.50
Consensus pattern (159 bp):
ATTTCTCTCTTTTTTTTCTCTCGTAAAAGTTTTCTTACTTTTAACCTTTTAATCTCACCCATTGA
TTTACAATTACCTATAATTTTTTTTATAATTTTGAGATAAATATATGATAATATTTATTAAAAAA
ATTTCAAATATTTTATAATGAATGTTCAT
Found at i:1121356 original size:6 final size:6
Alignment explanation
Indices: 1121345--1121378 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1121335 AAATAAACAA
1121345 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGG
1121379 CAGTTAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:1123139 original size:23 final size:24
Alignment explanation
Indices: 1123082--1123139 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
1123072 TTTTTCATTT
**
1123082 TGACACGTTTTTCTATGTTCTTGCA
1 TGACACGTTTTTCTATACTCTT-CA
* *
1123107 TCACACGTTTTTCTTTACTCTT-A
1 TGACACGTTTTTCTATACTCTTCA
1123130 TGACACGTTT
1 TGACACGTTT
1123140 CTTATGACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 10 0.36
25 18 0.64
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.48
Consensus pattern (24 bp):
TGACACGTTTTTCTATACTCTTCA
Found at i:1123468 original size:20 final size:20
Alignment explanation
Indices: 1123443--1123482 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1123433 CTCAAGGGAA
*
1123443 TATTTTATTTTCTTACTTCT
1 TATTTTATTTCCTTACTTCT
* *
1123463 TATTTTCTTTCCTTCCTTCT
1 TATTTTATTTCCTTACTTCT
1123483 CCTTCTCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTATTTCCTTACTTCT
Found at i:1126557 original size:26 final size:26
Alignment explanation
Indices: 1126481--1126560 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
1126471 ATTTAGTGCA
* *
1126481 TATGGTGGGCACGACCTTATGTGCAA
1 TATGGTGGGCACGACCTTATGTGTAT
*
1126507 TATGGTGGGCACGACTTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* * *
1126533 TGTGGTGGGCACAACCTTATTTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
1126559 TA
1 TA
1126561 GCACTTCGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:1135933 original size:24 final size:23
Alignment explanation
Indices: 1135908--1135950 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1135898 ATGTATACTA
*
1135908 TATATATATTATTAT-TTTTAGT
1 TATATATATTTTTATATTTTAGT
1135930 TATATATATTTTTATATTTTA
1 TATATATATTTTTATATTTTA
1135951 ATAATGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TATATATATTTTTATATTTTAGT
Found at i:1136160 original size:23 final size:23
Alignment explanation
Indices: 1136130--1136173 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1136120 GTATACTATA
*
1136130 TATATATATTATTATTTTTTAGT
1 TATATATATTATTATATTTTAGT
*
1136153 TATATATATTTTTATATTTTA
1 TATATATATTATTATATTTTA
1136174 ATAATGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TATATATATTATTATATTTTAGT
Found at i:1138147 original size:107 final size:107
Alignment explanation
Indices: 1138019--1138233 Score: 412
Period size: 107 Copynumber: 2.0 Consensus size: 107
1138009 CCAAAATTTA
* *
1138019 ATGTCAAATACTTGAAAATCATTTTTGAATAGATGTTATATTGTAATTACACCATATTAATAAAA
1 ATGTCAAATACTTGAAAATCATTTTTGAATAGATGCTATATTGTAATTACACCATATTAAAAAAA
1138084 AATTAGTTGATTTAATGATTTGAATTATATAAATTAAATCTG
66 AATTAGTTGATTTAATGATTTGAATTATATAAATTAAATCTG
1138126 ATGTCAAATACTTGAAAATCATTTTTGAATAGATGCTATATTGTAATTACACCATATTAAAAAAA
1 ATGTCAAATACTTGAAAATCATTTTTGAATAGATGCTATATTGTAATTACACCATATTAAAAAAA
1138191 AATTAGTTGATTTAATGATTTGAATTATATAAATTAAATCTG
66 AATTAGTTGATTTAATGATTTGAATTATATAAATTAAATCTG
1138233 A
1 A
1138234 ATAAATTTAA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (107 bp):
ATGTCAAATACTTGAAAATCATTTTTGAATAGATGCTATATTGTAATTACACCATATTAAAAAAA
AATTAGTTGATTTAATGATTTGAATTATATAAATTAAATCTG
Found at i:1140117 original size:17 final size:17
Alignment explanation
Indices: 1140095--1140139 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
1140085 AGTTATCGGA
1140095 TGGCCCTCTTTTGCTGC
1 TGGCCCTCTTTTGCTGC
1140112 TGGCCCTCTTTTGCTGC
1 TGGCCCTCTTTTGCTGC
1140129 TGGCCCTCTTT
1 TGGCCCTCTTT
1140140 CATTTTGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.00, C:0.36, G:0.22, T:0.42
Consensus pattern (17 bp):
TGGCCCTCTTTTGCTGC
Found at i:1143861 original size:17 final size:17
Alignment explanation
Indices: 1143841--1143901 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
1143831 ATTAGTTTTC
*
1143841 AAATTTTATATATTTTA
1 AAATTTTATATATTTAA
* *
1143858 AAA-TTGAAATGATTTAA
1 AAATTTTATAT-ATTTAA
1143875 TAAATCTTTA-ATATTTAA
1 -AAAT-TTTATATATTTAA
1143893 AAATTTTAT
1 AAATTTTAT
1143902 CTGTGCCGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
16 9 0.26
17 12 0.34
18 9 0.26
19 2 0.06
20 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (17 bp):
AAATTTTATATATTTAA
Found at i:1152168 original size:77 final size:77
Alignment explanation
Indices: 1152041--1152193 Score: 306
Period size: 77 Copynumber: 2.0 Consensus size: 77
1152031 ACTTGTTAAA
1152041 AGTTTACATTTAATATAAAATTCTATGTCCACGCCTAAATAAAAAATATTTCTTAAAATTTTAAT
1 AGTTTACATTTAATATAAAATTCTATGTCCACGCCTAAATAAAAAATATTTCTTAAAATTTTAAT
1152106 ATTGTCATATTC
66 ATTGTCATATTC
1152118 AGTTTACATTTAATATAAAATTCTATGTCCACGCCTAAATAAAAAATATTTCTTAAAATTTTAAT
1 AGTTTACATTTAATATAAAATTCTATGTCCACGCCTAAATAAAAAATATTTCTTAAAATTTTAAT
1152183 ATTGTCATATT
66 ATTGTCATATT
1152194 TCTAATTTAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (77 bp):
AGTTTACATTTAATATAAAATTCTATGTCCACGCCTAAATAAAAAATATTTCTTAAAATTTTAAT
ATTGTCATATTC
Found at i:1154519 original size:29 final size:29
Alignment explanation
Indices: 1154433--1154521 Score: 88
Period size: 31 Copynumber: 3.0 Consensus size: 29
1154423 GGGTATATAT
* * * *
1154433 TTTGACAAAAAAAATACTTTAGATACATAT
1 TTTGAC-AGAAAAATACTTTAGGTACTTAC
* *
1154463 TTTGACCGAAAATATAATTTTAGGTACTTAC
1 TTTGACAGAAAA-AT-ACTTTAGGTACTTAC
*
1154494 TTTGATAGAAAAATACTTTAGGTACTTA
1 TTTGACAGAAAAATACTTTAGGTACTTA
1154522 AATGAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 17 0.35
30 10 0.21
31 21 0.44
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTGACAGAAAAATACTTTAGGTACTTAC
Found at i:1157258 original size:25 final size:25
Alignment explanation
Indices: 1157230--1157280 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1157220 TGAACGAAGA
*
1157230 ATGACGAAA-TTCGATTAAGACAAAT
1 ATGA-GAAACTTCGATGAAGACAAAT
* *
1157255 ATGAGAAACTTTGATGCAGACAAAT
1 ATGAGAAACTTCGATGAAGACAAAT
1157280 A
1 A
1157281 AGTCTACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (25 bp):
ATGAGAAACTTCGATGAAGACAAAT
Found at i:1165082 original size:2 final size:2
Alignment explanation
Indices: 1165075--1165109 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1165065 TGCAATCTGA
1165075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1165110 CTTCATTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1180992 original size:2 final size:2
Alignment explanation
Indices: 1180985--1181014 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1180975 TAATTGTATC
1180985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1181015 TGATTAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1181453 original size:10 final size:10
Alignment explanation
Indices: 1181430--1181467 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1181420 TTGATCGTCA
1181430 TTTTTT-TTT
1 TTTTTTATTT
*
1181439 CTTTTTATTT
1 TTTTTTATTT
*
1181449 TTTTTTATAT
1 TTTTTTATTT
1181459 TTTTTTATT
1 TTTTTTATT
1181468 AAGAATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:1217693 original size:2 final size:2
Alignment explanation
Indices: 1217686--1217730 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1217676 CATTAATCTT
1217686 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1217727 TA TA
1 TA TA
1217731 GGTCTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1224143 original size:60 final size:60
Alignment explanation
Indices: 1224023--1224165 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
1224013 TATTTGGATG
* ** * * *
1224023 AATTTGAGGATGAAATTGGAAGATTAAAAAAATTGGGGACCAATTTAGAATGTGATTCAT
1 AATTTGAGGATGAAATTGGAATATTAAAAAAATTAAGGACCAATTTAAAATGAGAGTCAT
* * * ** * *
1224083 AGTTTGAGGATGAAATTAGAATATTCAAATGATTAAGGACTATTTTAAAATGAGAGTCAT
1 AATTTGAGGATGAAATTGGAATATTAAAAAAATTAAGGACCAATTTAAAATGAGAGTCAT
*
1224143 AACTT-ATGGATGAAATTGGAATA
1 AATTTGA-GGATGAAATTGGAATA
1224166 CTCGAAAGTT
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
59 1 0.02
60 65 0.98
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (60 bp):
AATTTGAGGATGAAATTGGAATATTAAAAAAATTAAGGACCAATTTAAAATGAGAGTCAT
Found at i:1224567 original size:31 final size:31
Alignment explanation
Indices: 1224529--1224599 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
1224519 ACAATATATT
* *
1224529 TGGTCACTTTCGTTTTTATTTAATTAGGATA
1 TGGTCACTTTCGTCTTTATTTAATTAAGATA
* *
1224560 TGGTCACTTTTGTCTTTATTTAATTAAGATG
1 TGGTCACTTTCGTCTTTATTTAATTAAGATA
*
1224591 TAGTCACTT
1 TGGTCACTT
1224600 ATCTTATCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (31 bp):
TGGTCACTTTCGTCTTTATTTAATTAAGATA
Found at i:1237202 original size:4 final size:4
Alignment explanation
Indices: 1237195--1237234 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
1237185 TATCTATATG
* *
1237195 TGTA TGTA TGTA TGTA T-AA TGTA TGTA TGTA TGTG TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1237235 ATACCCTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:1237218 original size:15 final size:15
Alignment explanation
Indices: 1237198--1237226 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1237188 CTATATGTGT
1237198 ATGTATGTATGTATA
1 ATGTATGTATGTATA
1237213 ATGTATGTATGTAT
1 ATGTATGTATGTAT
1237227 GTGTGTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
ATGTATGTATGTATA
Found at i:1239303 original size:27 final size:29
Alignment explanation
Indices: 1239240--1239303 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
1239230 AGGGATCTAG
*
1239240 AGTTTTTTTCTTGAGATATTATAAAATTT
1 AGTTTTTTTCTTGAGAAATTATAAAATTT
** *
1239269 AGAGTTTTT-TT-AGAAATTTTAAAATTT
1 AGTTTTTTTCTTGAGAAATTATAAAATTT
1239296 AGTTTTTT
1 AGTTTTTT
1239304 AAAATAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 20 0.69
28 2 0.07
29 7 0.24
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (29 bp):
AGTTTTTTTCTTGAGAAATTATAAAATTT
Found at i:1240855 original size:54 final size:54
Alignment explanation
Indices: 1240773--1240894 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 54
1240763 GGGTCAAGCA
* * * ** *
1240773 CAGGGTTGACAACATTGGATCCTGTGGGATTCGGACCCGTTTTTGCACCCACAC
1 CAGGGTTGGCAACATTAGATCCTGTGGGAATCGGACCCGTGGTGGCACCCACAC
* * * *
1240827 CAGGGTTGGCAACATTAGCTCTTGTGGGAATGGGACCTGTGGTGGCACCCACAC
1 CAGGGTTGGCAACATTAGATCCTGTGGGAATCGGACCCGTGGTGGCACCCACAC
1240881 CAGGGTTGGCAACA
1 CAGGGTTGGCAACA
1240895 ACTGCAGCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (54 bp):
CAGGGTTGGCAACATTAGATCCTGTGGGAATCGGACCCGTGGTGGCACCCACAC
Found at i:1241179 original size:2 final size:2
Alignment explanation
Indices: 1241174--1241198 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1241164 TATATATATA
1241174 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1241199 TTATATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1243318 original size:84 final size:84
Alignment explanation
Indices: 1243209--1243379 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 84
1243199 ATCAACTGGA
*
1243209 TTGATTTCATATTCAGAAAACGTAGAATTCTCTTCTAGCAAGTGGTTCTTTTCTGATTCTAGGTC
1 TTGATTTCATATTCAGAAAACGTAGAATTCTCTCCTAGCAAGTGGTTCTTTTCTGATTCTAGGTC
* *
1243274 TGGACTAGATTGAGACTGC
66 TGGACTAGATCGAAACTGC
* *
1243293 TTGATTTCATTTTTAG-AAACTGTAGAATTCTCTCCTAGCAAGTGGTTCTTTTCTGATTCTAGGT
1 TTGATTTCATATTCAGAAAAC-GTAGAATTCTCTCCTAGCAAGTGGTTCTTTTCTGATTCTAGGT
*
1243357 TTGGACTAGATCGAAACTGC
65 CTGGACTAGATCGAAACTGC
1243377 TTG
1 TTG
1243380 CAGTTGGATC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
83 4 0.05
84 76 0.95
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (84 bp):
TTGATTTCATATTCAGAAAACGTAGAATTCTCTCCTAGCAAGTGGTTCTTTTCTGATTCTAGGTC
TGGACTAGATCGAAACTGC
Found at i:1248080 original size:15 final size:17
Alignment explanation
Indices: 1248060--1248092 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
1248050 ATTTTTCGGG
1248060 TGATTTTG-ATTA-GTT
1 TGATTTTGTATTATGTT
1248075 TGATTTTGTATTATGTT
1 TGATTTTGTATTATGTT
1248092 T
1 T
1248093 TCAAGGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (17 bp):
TGATTTTGTATTATGTT
Found at i:1249555 original size:13 final size:12
Alignment explanation
Indices: 1249528--1249561 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
1249518 CATTGATAAA
*
1249528 ATTTTAAAGTAT
1 ATTTTAAAATAT
1249540 ATTTTATAAATAT
1 ATTTTA-AAATAT
1249553 ATTTTAAAA
1 ATTTTAAAA
1249562 AAATCAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
ATTTTAAAATAT
Found at i:1257452 original size:29 final size:30
Alignment explanation
Indices: 1257397--1257457 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
1257387 CATTTTGAGT
* *
1257397 AACGGAATAAAATGTTAGGCACCAAACTGG
1 AACGAAATAAAATGTTAGACACCAAACTGG
*
1257427 AACGAAAT-AAATGTTAGACACTAAACTGG
1 AACGAAATAAAATGTTAGACACCAAACTGG
1257456 AA
1 AA
1257458 ACACAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (30 bp):
AACGAAATAAAATGTTAGACACCAAACTGG
Found at i:1260122 original size:18 final size:19
Alignment explanation
Indices: 1260084--1260134 Score: 95
Period size: 18 Copynumber: 2.7 Consensus size: 19
1260074 TTTGTGGGTT
1260084 TAAATTATGGGTTTGGGGG
1 TAAATTATGGGTTTGGGGG
1260103 TAAATTATGGGTTT-GGGG
1 TAAATTATGGGTTTGGGGG
1260121 TAAATTATGGGTTT
1 TAAATTATGGGTTT
1260135 CTTTTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (19 bp):
TAAATTATGGGTTTGGGGG
Found at i:1260772 original size:40 final size:41
Alignment explanation
Indices: 1260701--1260797 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 41
1260691 CGCAACTTAA
* *
1260701 TTTCGAATTCGCAACACGAAAGCTAAATTCGCAATAC-AAT
1 TTTCGAATTCGCAACAAGAAAGCTAAATTCGCAACACGAAT
** *
1260741 TTTCGAATTCGCAACAAG-AATTTACATTTCGCAACACGAAT
1 TTTCGAATTCGCAACAAGAAAGCTA-AATTCGCAACACGAAT
* *
1260782 TTGCCAAATTCGCAAC
1 TT-TCGAATTCGCAAC
1260798 TCAGTTTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.09
40 27 0.57
41 5 0.11
42 11 0.23
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (41 bp):
TTTCGAATTCGCAACAAGAAAGCTAAATTCGCAACACGAAT
Found at i:1261065 original size:22 final size:22
Alignment explanation
Indices: 1261035--1261135 Score: 91
Period size: 22 Copynumber: 4.7 Consensus size: 22
1261025 AAACACTGTA
*
1261035 AAATT-GAGTTGCGAAATTAGC
1 AAATTCGAGTTGCGAAATTGGC
* * *
1261056 CAATTCGAGTTGTGAAA-T-CC
1 AAATTCGAGTTGCGAAATTGGC
* * *
1261076 GAATTCGAGTTGCGAATTTGGT
1 AAATTCGAGTTGCGAAATTGGC
* *
1261098 AAATTCGTGTTGCGAATTTGGC
1 AAATTCGAGTTGCGAAATTGGC
*
1261120 AAATTCGTGTTGCGAA
1 AAATTCGAGTTGCGAA
1261136 TTCGTTGGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
20 15 0.23
21 6 0.09
22 45 0.68
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (22 bp):
AAATTCGAGTTGCGAAATTGGC
Found at i:1261136 original size:22 final size:22
Alignment explanation
Indices: 1261077--1261137 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
1261067 GTGAAATCCG
* *
1261077 AATTCGAGTTGCGAATTTGGTA
1 AATTCGTGTTGCGAATTTGGCA
1261099 AATTCGTGTTGCGAATTTGGCA
1 AATTCGTGTTGCGAATTTGGCA
1261121 AATTCGTGTTGCGAATT
1 AATTCGTGTTGCGAATT
1261138 CGTTGGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (22 bp):
AATTCGTGTTGCGAATTTGGCA
Found at i:1277986 original size:28 final size:29
Alignment explanation
Indices: 1277946--1278003 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
1277936 ATTTTCACCT
*
1277946 AACTAATTTGATGTAA-CAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1277974 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1278003 A
1 A
1278004 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1282666 original size:29 final size:29
Alignment explanation
Indices: 1282624--1282682 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1282614 ATTTTCACCT
1282624 AACTAAATTGATGTAAGAAATGACATCAA
1 AACTAAATTGATGTAAGAAATGACATCAA
*
1282653 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGAAATGACATCAA
1282682 A
1 A
1282683 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGAAATGACATCAA
Found at i:1293248 original size:27 final size:28
Alignment explanation
Indices: 1293186--1293252 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
1293176 CCTAAACCCG
1293186 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
1293214 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
1293242 AA-CCGACCCGA
1 AACCCGACCCGA
1293253 CTCGACTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.45, C:0.34, G:0.09, T:0.12
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:1295175 original size:41 final size:41
Alignment explanation
Indices: 1295130--1295466 Score: 620
Period size: 41 Copynumber: 8.2 Consensus size: 41
1295120 GATTCGCAAC
*
1295130 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
*
1295171 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
* *
1295212 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1295253 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1295294 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1295335 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1295376 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCC-AATTCGTT
1295418 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCC-AATTCGTT
1295460 GCGATAG
1 GCGATAG
1295467 TCCAAATATT
Statistics
Matches: 290, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
41 233 0.80
42 57 0.20
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
Found at i:1295868 original size:31 final size:31
Alignment explanation
Indices: 1295826--1295889 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
1295816 ACCAAACAAA
*
1295826 TGCAAATGAGACAATGATGGAAGTTTTCAAC
1 TGCAAAGGAGACAATGATGGAAGTTTTCAAC
1295857 TGCAAAGGAGACAATGATGGAAGTTTTCAAC
1 TGCAAAGGAGACAATGATGGAAGTTTTCAAC
1295888 TG
1 TG
1295890 AGGATGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (31 bp):
TGCAAAGGAGACAATGATGGAAGTTTTCAAC
Found at i:1296434 original size:41 final size:42
Alignment explanation
Indices: 1296321--1296614 Score: 506
Period size: 41 Copynumber: 7.1 Consensus size: 42
1296311 AATATTTGGA
1296321 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1296363 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
1296405 CTGTCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1296446 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1296487 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
1296528 CTATCGCAAC-AATTTGGAATGAATCGCAACGCAAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
1296569 CTATCTCAACGAATTTGAAATGAATCGCAACGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1296611 CTAT
1 CTAT
1296615 TGCGTTGCGA
Statistics
Matches: 242, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
40 1 0.00
41 154 0.64
42 87 0.36
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:1299059 original size:25 final size:22
Alignment explanation
Indices: 1299015--1299060 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1299005 ATGGTGATGC
1299015 ATTATATTTTATGATTAGATTT
1 ATTATATTTTATGATTAGATTT
*
1299037 ATTATTTTATTATGAATTAAGATT
1 ATTATATT-TTATG-ATT-AGATT
1299061 GAGTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 3 0.15
25 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
ATTATATTTTATGATTAGATTT
Found at i:1300829 original size:39 final size:39
Alignment explanation
Indices: 1300784--1300885 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 39
1300774 AGAAATAATC
* *
1300784 TAGAATGTTAGGGTGAAATAATTTAAGAAATT-AGAAATT
1 TAGAATGTTAAGGTAAAATAATTTAAGAAATTAAG-AATT
1300823 TAGAATGTTAAGGTAAAATAATTTAAGAAATTAAGAATT
1 TAGAATGTTAAGGTAAAATAATTTAAGAAATTAAGAATT
* *
1300862 TAGAAGGTTAAGATAAAATAATTT
1 TAGAATGTTAAGGTAAAATAATTT
1300886 GAGATTCATG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 56 0.97
40 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (39 bp):
TAGAATGTTAAGGTAAAATAATTTAAGAAATTAAGAATT
Found at i:1302638 original size:2 final size:2
Alignment explanation
Indices: 1302631--1302655 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1302621 ATATTTCATA
1302631 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1302656 CTATTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1303135 original size:21 final size:21
Alignment explanation
Indices: 1303108--1303190 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
1303098 TTACGATTTA
*
1303108 CAAGTTCGCATTGCGATAGTC
1 CAAGTTCGCGTTGCGATAGTC
* *
1303129 GAAGTTCGCGTTGCGATTTATTC
1 CAAGTTCGCGTTGCGA--TAGTC
* *
1303152 CAAATT--CGTTGCGATAATC
1 CAAGTTCGCGTTGCGATAGTC
1303171 CAAGTTCGCGTTGCGATAGT
1 CAAGTTCGCGTTGCGATAGT
1303191 TCGACTATCG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.18
21 33 0.66
23 8 0.16
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
CAAGTTCGCGTTGCGATAGTC
Found at i:1303249 original size:42 final size:42
Alignment explanation
Indices: 1303190--1303357 Score: 218
Period size: 42 Copynumber: 4.0 Consensus size: 42
1303180 GTTGCGATAG
*
1303190 TTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1303232 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * * *
1303274 TTGGACTATCACAACTAATTTGG-A-AAATCGCAACGCGAAC
1 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
1303314 TTCGACTATTGTAACGCGAACTTGGACT--ATCGCAACGCGAAC
1 TTCGACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAAC
1303356 TT
1 TT
1303358 GTAAATCGCA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 26 0.24
41 1 0.01
42 83 0.75
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:1303288 original size:21 final size:21
Alignment explanation
Indices: 1303193--1303358 Score: 146
Period size: 21 Copynumber: 8.0 Consensus size: 21
1303183 GCGATAGTTC
*
1303193 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTG
* *
1303212 GAATAAATCGCAACGCGAACTTC
1 GACT--ATCGCAACGCGAACTTG
1303235 GACTATCGCAA--CGAACTTG
1 GACTATCGCAACGCGAACTTG
*
1303254 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAACGCGAACTTG
* * *
1303277 GACTATCACAA--CTAATTTG
1 GACTATCGCAACGCGAACTTG
** *
1303296 GAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTG
* *
1303317 GACTATTGTAACGCGAACTTG
1 GACTATCGCAACGCGAACTTG
1303338 GACTATCGCAACGCGAACTTG
1 GACTATCGCAACGCGAACTTG
1303359 TAAATCGCAT
Statistics
Matches: 114, Mismatches: 23, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
19 27 0.24
21 67 0.59
23 20 0.18
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTG
Found at i:1303346 original size:82 final size:83
Alignment explanation
Indices: 1303193--1303358 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 83
1303183 GCGATAGTTC
*
1303193 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
1303258 AAATCGCAACGCGAACTTG
66 -AATCGCAACGCGAACTTG
* * *
1303277 GACTATCACAACTAATTTGG-A-AAATCGCAACGCGAACTTCGACTATTGTAACGCGAACTTGGA
1 GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGA
*
1303340 CT-ATCGCAACGCGAACTTG
64 ATAATCGCAACGCGAACTTG
1303359 TAAATCGCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
82 45 0.60
83 1 0.01
84 29 0.39
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (83 bp):
GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
AATCGCAACGCGAACTTG
Found at i:1303387 original size:21 final size:21
Alignment explanation
Indices: 1303363--1303415 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1303353 AACTTGTAAA
*
1303363 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1303384 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1303405 TTGCGTTGCGA
1 TCGCGTTGCGA
1303416 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:1307040 original size:35 final size:35
Alignment explanation
Indices: 1306992--1307058 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
1306982 AAAAGTGTAG
* * * *
1306992 ATTTAGAACGTTATATTATAAATTTAGGGATAAGA
1 ATTTAAAAAGTTATATTAGAAATTTAGAGATAAGA
1307027 ATTTAAAAAGTTATATTAGAAATTTAGAGATA
1 ATTTAAAAAGTTATATTAGAAATTTAGAGATA
1307059 CAACCTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.37
Consensus pattern (35 bp):
ATTTAAAAAGTTATATTAGAAATTTAGAGATAAGA
Found at i:1317261 original size:18 final size:18
Alignment explanation
Indices: 1317238--1317277 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1317228 GCCCAAAAGG
*
1317238 ACCTACAAGTACTGAAGC
1 ACCTACAAGTAATGAAGC
*
1317256 ACCTACTAGTAATGAAGC
1 ACCTACAAGTAATGAAGC
1317274 ACCT
1 ACCT
1317278 CTGAATGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (18 bp):
ACCTACAAGTAATGAAGC
Found at i:1317275 original size:189 final size:188
Alignment explanation
Indices: 1316963--1317423 Score: 586
Period size: 189 Copynumber: 2.4 Consensus size: 188
1316953 TAACGGAGGT
* *
1316963 TTGAGCGTTAGCAGTGGTAAGCTGAGGAGAAGGACGTGCTACCAGTGCGGACAAAAGGGTCATAT
1 TTGAGCGTTAGCAGTGGTAAGTTGAGGAGAAGGACGTGCTACGAGTGCGGACAAAAGGGTCATAT
* * * * * * * * *
1317028 TTCTTCTGCTTGCCCTAAAGGACCTGCGAGTGCCGAAGCGCCTATTGGTCACGAAGCACGTACTG
66 TTCTTCTGCTTGCCCAAAAGGACCTACAAGTACCGAAGCACCTACTAGTAACGAAGCACCT-CTG
* * ** * * *
1317093 -GTAATGAAGCACCTCT-GAGCGTCGAAGCACCTACAGTTAATGAAGTTGATAATGTTGG-C
130 AATAATGAAGCACCACTAGAGAAT-GAACCACCTACAGTTAATGAAGTTGAGAACG--GGAC
* * *
1317152 TTGAGCGTTAGCAGTGGTAAGTTGAGGAGAAGGACGTGCTATGTGTGCGGACAAAAGGGCCATAT
1 TTGAGCGTTAGCAGTGGTAAGTTGAGGAGAAGGACGTGCTACGAGTGCGGACAAAAGGGTCATAT
* *
1317217 TTCTTCTGCTTGCCCAAAAGGACCTACAAGTACTGAAGCACCTACTAGTAATGAAGCACCTCTGA
66 TTCTTCTGCTTGCCCAAAAGGACCTACAAGTACCGAAGCACCTACTAGTAACGAAGCACCTCTGA
** * * *
1317282 ATGTTGAAGCACCACTAGATAATGAACCACCTCCAGTTAATGAAGTTGAGAACGGGAT
131 ATAATGAAGCACCACTAGAGAATGAACCACCTACAGTTAATGAAGTTGAGAACGGGAC
*
1317340 TTCGAGCGTTAGTAGTGGTAAGTTGAGGAGAAGGACGTGCTACGAGTGCGGACAAAAGGGTCATA
1 TT-GAGCGTTAGCAGTGGTAAGTTGAGGAGAAGGACGTGCTACGAGTGCGGACAAAAGGGTCATA
*
1317405 TTTCTTCTGCCTGCCCAAA
65 TTTCTTCTGCTTGCCCAAA
1317424 TAAGAAATCT
Statistics
Matches: 235, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
187 2 0.01
188 5 0.02
189 225 0.96
190 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (188 bp):
TTGAGCGTTAGCAGTGGTAAGTTGAGGAGAAGGACGTGCTACGAGTGCGGACAAAAGGGTCATAT
TTCTTCTGCTTGCCCAAAAGGACCTACAAGTACCGAAGCACCTACTAGTAACGAAGCACCTCTGA
ATAATGAAGCACCACTAGAGAATGAACCACCTACAGTTAATGAAGTTGAGAACGGGAC
Found at i:1317307 original size:18 final size:18
Alignment explanation
Indices: 1317250--1317326 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
1317240 CTACAAGTAC
1317250 TGAAGCACCTACTAG-TAA
1 TGAAGCACC-ACTAGATAA
* **
1317268 TGAAGCACCTCT-GAATGT
1 TGAAGCACCACTAG-ATAA
1317286 TGAAGCACCACTAGATAA
1 TGAAGCACCACTAGATAA
* * * *
1317304 TGAACCACCTCCAGTTAA
1 TGAAGCACCACTAGATAA
1317322 TGAAG
1 TGAAG
1317327 TTGAGAACGG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
16 1 0.02
17 2 0.04
18 41 0.91
19 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (18 bp):
TGAAGCACCACTAGATAA
Found at i:1323360 original size:63 final size:64
Alignment explanation
Indices: 1323282--1323415 Score: 234
Period size: 64 Copynumber: 2.1 Consensus size: 64
1323272 CAGTGTAAAT
* * *
1323282 GGATTCTAACTCTATATATATATAT-GGTTTGGATACACTTACATTTAGTGTTATATTTTTTTA
1 GGATTCTAACTCTATATATATATATGGGTTTGGATACACTTACATCTAGTATTACATTTTTTTA
1323345 GGATTCTAACTCTATATATATATATGGGTTTGGATACACTTACATCTAGTATTACATTTTTTTA
1 GGATTCTAACTCTATATATATATATGGGTTTGGATACACTTACATCTAGTATTACATTTTTTTA
1323409 GGATTCT
1 GGATTCT
1323416 TAAACGAGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
63 25 0.37
64 42 0.63
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (64 bp):
GGATTCTAACTCTATATATATATATGGGTTTGGATACACTTACATCTAGTATTACATTTTTTTA
Found at i:1323569 original size:19 final size:21
Alignment explanation
Indices: 1323547--1323594 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1323537 TGTAAACATT
*
1323547 TTAATT-TTACACTATATA-A
1 TTAATTCTAACACTATATATA
*
1323566 TTAAATTCTAACCCTATATATA
1 TT-AATTCTAACACTATATATA
1323588 TTAATTC
1 TTAATTC
1323595 ATATACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 4 0.17
21 15 0.62
22 3 0.12
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATTCTAACACTATATATA
Found at i:1327455 original size:82 final size:77
Alignment explanation
Indices: 1327318--1327476 Score: 273
Period size: 82 Copynumber: 2.0 Consensus size: 77
1327308 CTGATGGCAA
1327318 GTTTGACACTTTATGTGCAATCATTACAAAACCGTTCCAAGTAAACCCCAGAAAACGAAATGTTT
1 GTTTGACACTTTATGTGCAATCATTACAAAACCGTTCCAAGTAAACCCCAGAAAACGAAATGTTT
1327383 GACAGGTTTTCC
66 GACAGGTTTTCC
1327395 GTTTGACACTTTATGTGCAATATCATTACAAAACCGTTCATCCAAGTAAACCCCAGAAAACGAAA
1 GTTTGACACTTTATGTGC-A-ATCATTACAAAACCG-T--TCCAAGTAAACCCCAGAAAACGAAA
1327460 TGTTTGACAGGTTTTCC
61 TGTTTGACAGGTTTTCC
1327477 AGAAGCAGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
77 18 0.23
78 1 0.01
79 15 0.19
80 1 0.01
82 42 0.55
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (77 bp):
GTTTGACACTTTATGTGCAATCATTACAAAACCGTTCCAAGTAAACCCCAGAAAACGAAATGTTT
GACAGGTTTTCC
Found at i:1328315 original size:59 final size:60
Alignment explanation
Indices: 1328246--1328378 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
1328236 TTTCAAAATT
* * * * *
1328246 ATCCCTAACTATGAT-AATCATTCTTAATTTGTCCTCAAAC-TTTTGAACATTT-ATTTTC
1 ATCCCAAACTAT-ATCAATCATTCTAAATTAGTCCTCAAACTTTTTCAACATTTCAATTTC
* * *
1328304 ATCCCCAAACTATCTCATTCATTCTAAATTAGTCCTTAAACTTTTTCAACATTTCAATTTC
1 AT-CCCAAACTATATCAATCATTCTAAATTAGTCCTCAAACTTTTTCAACATTTCAATTTC
1328365 ATCCCAAACTATAT
1 ATCCCAAACTATAT
1328379 GTATATACTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
58 3 0.05
59 30 0.48
60 22 0.35
61 7 0.11
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (60 bp):
ATCCCAAACTATATCAATCATTCTAAATTAGTCCTCAAACTTTTTCAACATTTCAATTTC
Found at i:1329434 original size:13 final size:13
Alignment explanation
Indices: 1329416--1329478 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
1329406 TTATATGGCA
1329416 CTACGGTGCAATT
1 CTACGGTGCAATT
1329429 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1329438 CTTCGGTGCAATT
1 CTACGGTGCAATT
1329451 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1329460 CTTCGGTGCAATT
1 CTACGGTGCAATT
1329473 CTACGG
1 CTACGG
1329479 GCACTTCGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 10 0.26
10 4 0.11
11 4 0.11
12 4 0.11
13 16 0.42
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:1329499 original size:22 final size:22
Alignment explanation
Indices: 1329412--1329491 Score: 151
Period size: 22 Copynumber: 3.6 Consensus size: 22
1329402 ATCATTATAT
*
1329412 GGCACTACGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1329434 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1329456 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1329478 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1329492 TTTATACGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.25
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:1334139 original size:157 final size:158
Alignment explanation
Indices: 1333890--1334205 Score: 600
Period size: 157 Copynumber: 2.0 Consensus size: 158
1333880 GGTGATTGGT
1333890 GAGAAATGATAGAAATTATATGAAAACATGACATATGTGACATGTGAATTATATGGAAATGATCT
1 GAGAAATGATAGAAATTATATGAAAACATGACATATGTGACATGTGAATTATATGGAAATGATCT
1333955 ACGTGCAAGTGAACTACGGGACTATGTGATCAT-GAAAAGAAGCTATGTGATACGTGATATGTGA
66 ACGTGCAAGTGAACTACGGGACTATGTGATCATAG-AAAGAAGCTATGTGATACGTGATATGTGA
1334019 AAGTGAATTACAAGTTTA-TGAATATTTG
130 AAGTGAATTACAAGTTTAGTGAATATTTG
1334047 GAGAAATGATAGAAATTATATGAAAACATGACATATGTGACATGTGAATTATATGGAAATGATCT
1 GAGAAATGATAGAAATTATATGAAAACATGACATATGTGACATGTGAATTATATGGAAATGATCT
1334112 ACGTGCAAGTGAACTACGGGACTATGTGATCATATGAAAGAAGCTATGTGATACGTGATATGTGA
66 ACGTGCAAGTGAACTACGGGACTATGTGATCATA-GAAAGAAGCTATGTGATACGTGATATGTGA
1334177 AAGTGAATTACAAGTTTAGTGAATATTTG
130 AAGTGAATTACAAGTTTAGTGAATATTTG
1334206 AAATGAAATA
Statistics
Matches: 156, Mismatches: 0, Indels: 4
0.98 0.00 0.03
Matches are distributed among these distances:
157 98 0.63
158 47 0.30
159 11 0.07
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (158 bp):
GAGAAATGATAGAAATTATATGAAAACATGACATATGTGACATGTGAATTATATGGAAATGATCT
ACGTGCAAGTGAACTACGGGACTATGTGATCATAGAAAGAAGCTATGTGATACGTGATATGTGAA
AGTGAATTACAAGTTTAGTGAATATTTG
Found at i:1334220 original size:9 final size:9
Alignment explanation
Indices: 1334206--1334238 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1334196 TGAATATTTG
1334206 AAATGAAAT
1 AAATGAAAT
1334215 AAATGATAA-
1 AAATGA-AAT
1334224 AAATGAAAT
1 AAATGAAAT
1334233 AAATGA
1 AAATGA
1334239 TAACGCCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (9 bp):
AAATGAAAT
Found at i:1334229 original size:18 final size:18
Alignment explanation
Indices: 1334206--1334241 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1334196 TGAATATTTG
1334206 AAATGAAATAAATGATAA
1 AAATGAAATAAATGATAA
1334224 AAATGAAATAAATGATAA
1 AAATGAAATAAATGATAA
1334242 CGCCCATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (18 bp):
AAATGAAATAAATGATAA
Found at i:1334449 original size:13 final size:13
Alignment explanation
Indices: 1334431--1334493 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
1334421 TTATATGGCA
1334431 CTACGGTGCAATT
1 CTACGGTGCAATT
1334444 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1334453 CTTCGGTGCAATT
1 CTACGGTGCAATT
1334466 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1334475 CTTCGGTGCAATT
1 CTACGGTGCAATT
1334488 CTACGG
1 CTACGG
1334494 GGCACTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 10 0.26
10 4 0.11
11 4 0.11
12 4 0.11
13 16 0.42
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:1334459 original size:22 final size:22
Alignment explanation
Indices: 1334427--1334507 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
1334417 ATCATTATAT
*
1334427 GGCACTACGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1334449 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
1334471 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTAC-G
1334494 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1334508 TTTATACGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 42 0.74
23 15 0.26
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.25
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:1339099 original size:11 final size:12
Alignment explanation
Indices: 1339077--1339101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1339067 CTATTAGCAA
1339077 TTTCCTTTTTTT
1 TTTCCTTTTTTT
1339089 TTTCCTTTTTTT
1 TTTCCTTTTTTT
1339101 T
1 T
1339102 GTTACACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTCCTTTTTTT
Found at i:1346131 original size:2 final size:2
Alignment explanation
Indices: 1346124--1346192 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
1346114 TTATACTTTC
1346124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1346166 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1346193 AATTACGTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1349143 original size:3 final size:3
Alignment explanation
Indices: 1349135--1349184 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1349125 CAAATGCATC
1349135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1349183 AA
1 AA
1349185 AAGGTGTGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1356290 original size:73 final size:74
Alignment explanation
Indices: 1356186--1356326 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 74
1356176 ATTAAGATAA
* * * *
1356186 GGGTTGAAATATTTTTTTATTTTTTATAAATATAATTTTTTAATTGAGGAGGA-CGAATAAATTT
1 GGGTTAAAATATTTTTTTACTTTTCAGAAATATAATTTTTTAATTGA-GAGGATCGAATAAATTT
1356250 TTCTAAGGTG
65 TTCTAAGGTG
1356260 GGGTTAAAATA-TTTTTTACTTTTCAGAAATATAATTTTTTAATTGAGAGGATCGAATAAATTTT
1 GGGTTAAAATATTTTTTTACTTTTCAGAAATATAATTTTTTAATTGAGAGGATCGAATAAATTTT
1356324 TCT
66 TCT
1356327 TTATTTATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 5 0.08
73 47 0.76
74 10 0.16
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (74 bp):
GGGTTAAAATATTTTTTTACTTTTCAGAAATATAATTTTTTAATTGAGAGGATCGAATAAATTTT
TCTAAGGTG
Found at i:1357195 original size:30 final size:30
Alignment explanation
Indices: 1357160--1357229 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
1357150 TCAACCGTCT
1357160 CCATTTAATCCTTTCTTCCTACCGTCCACA
1 CCATTTAATCCTTTCTTCCTACCGTCCACA
1357190 CCATTTAATCCTTTCTTCCTACCGTCCACA
1 CCATTTAATCCTTTCTTCCTACCGTCCACA
1357220 CCATTTAATC
1 CCATTTAATC
1357230 TTCAGCTGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.39, G:0.03, T:0.37
Consensus pattern (30 bp):
CCATTTAATCCTTTCTTCCTACCGTCCACA
Found at i:1369121 original size:39 final size:39
Alignment explanation
Indices: 1369068--1369179 Score: 145
Period size: 39 Copynumber: 2.9 Consensus size: 39
1369058 TTATTTCTAA
* ** *
1369068 TTCTCAAATTATTTCATTATAACATTTTAAATTCTTAAT
1 TTCTTAAATTATTTCACCATAACATTTTAAATTATTAAT
*
1369107 TTCTTAAATTATTTCACCATAATATTTTAAATTATTAAT
1 TTCTTAAATTATTTCACCATAACATTTTAAATTATTAAT
* *
1369146 TTCTTAAATTATTTTAACC-TAACAATTTAAATTA
1 TTCTTAAATTA-TTTCACCATAACATTTTAAATTA
1369180 CTTCAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 58 0.91
40 6 0.09
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (39 bp):
TTCTTAAATTATTTCACCATAACATTTTAAATTATTAAT
Found at i:1371305 original size:29 final size:30
Alignment explanation
Indices: 1371263--1371324 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
1371253 ATCCATAGTG
*
1371263 TGATGGGGAGCGGTGGA-ACCTTGTTGACT
1 TGATGGGGAGCGGTGGAGACATTGTTGACT
1371292 TGATGGGGAGCGGTGGAGACATTGTTGACT
1 TGATGGGGAGCGGTGGAGACATTGTTGACT
1371322 TGA
1 TGA
1371325 ATGGAGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.27
Consensus pattern (30 bp):
TGATGGGGAGCGGTGGAGACATTGTTGACT
Found at i:1373024 original size:21 final size:19
Alignment explanation
Indices: 1372985--1373024 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
1372975 ATTTTAATCT
*
1372985 ATAATATATATTCATAGAA
1 ATAATATATATTCAAAGAA
1373004 ATAATATATAATTACAAAGAA
1 ATAATATAT-ATT-CAAAGAA
1373025 GATTTACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAATATATATTCAAAGAA
Found at i:1373150 original size:26 final size:27
Alignment explanation
Indices: 1373121--1373171 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1373111 CTACGATCTC
*
1373121 AATCAAATTAGA-TTTCTTTTTTTTTT
1 AATCAAATTAGATTTTCTATTTTTTTT
**
1373147 AATCGGATTAGATTTTCTATTTTTT
1 AATCAAATTAGATTTTCTATTTTTT
1373172 AGTTTTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (27 bp):
AATCAAATTAGATTTTCTATTTTTTTT
Found at i:1374058 original size:17 final size:17
Alignment explanation
Indices: 1374034--1374076 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1374024 CTCCCTGAAG
1374034 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
*
1374051 CTCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
1374068 CCCGTGACC
1 CCCGTGACC
1374077 TGCAAGCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.47, G:0.23, T:0.14
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:1375560 original size:13 final size:13
Alignment explanation
Indices: 1375542--1375566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1375532 GTATATAGTT
1375542 TTTTTATTTATTC
1 TTTTTATTTATTC
1375555 TTTTTATTTATT
1 TTTTTATTTATT
1375567 TCAAATTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTATTC
Found at i:1377075 original size:1 final size:1
Alignment explanation
Indices: 1377069--1377099 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
1377059 TTCCCTCGAA
1377069 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1377100 GCAAAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1381709 original size:22 final size:23
Alignment explanation
Indices: 1381673--1381719 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
1381663 TAAAAGTTAG
1381673 GGAGGTGATGTCACCCATGTCTT
1 GGAGGTGATGTCACCCATGTCTT
1381696 GGAGGTG-TGTCACCCATGTCTT
1 GGAGGTGATGTCACCCATGTCTT
1381718 GG
1 GG
1381720 GTGTGGCGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (23 bp):
GGAGGTGATGTCACCCATGTCTT
Found at i:1387261 original size:25 final size:24
Alignment explanation
Indices: 1387232--1387299 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
1387222 GAAAAAGAAG
***
1387232 AAGAAAAAATGAGTGAAAATGAAAA
1 AAGAAAAAATGAAAAAAAAT-AAAA
*
1387257 AAGAAAAAATAAAAAAAAATAAAA
1 AAGAAAAAATGAAAAAAAATAAAA
*
1387281 AATGAAAAAATGGAAAAAA
1 AA-GAAAAAATGAAAAAAA
1387300 GGAAGGGTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.10
Consensus pattern (24 bp):
AAGAAAAAATGAAAAAAAATAAAA
Found at i:1387273 original size:17 final size:18
Alignment explanation
Indices: 1387253--1387290 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1387243 AGTGAAAATG
1387253 AAAAAAGAAAAAAT-AAA
1 AAAAAAGAAAAAATGAAA
*
1387270 AAAAAATAAAAAATGAAA
1 AAAAAAGAAAAAATGAAA
1387288 AAA
1 AAA
1387291 TGGAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAGAAAAAATGAAA
Done.